AlignACE 3.0 10/20/99 AlignACE2 -i TP/TP_operons033_300.orf Parameter values: expect = 10 gcback = 0.38 minpass = 200 seed = 944240079 numcols = 10 undersample = 1 oversample = 1 Input sequences: #0 TP0659 33 flagellar hook-associated protein 3 (flgL) #1 TP0660 105 flagellar hook-associated protein 1 (flgK) #2 TP0661 122 T. pallidum predicted coding region TP0661 #3 TP0662 266 fructose-bisphosphate aldolase (cbbA) Motif 1 GATAGTGCACGGTATGAGGAAGGGAGG 0 16 1 GGTGCGGTACCTCGGGGGAGGAGCAGAGCGC 1 5 1 GTATCCACAGGGCGAGAGGGAGGTTCCTGATGGGGC 1 43 1 GTTCCTGATGGGGCTGCTGCGCGTACCCTCCATTCT 1 65 1 CAGCTCCGCAGGCTACTGGACGGCTCGCACCTGCTG 2 13 0 ATAAAAAACCGTCCAGTGGTCTGCAGCTCCGCAGGC 2 36 0 AAAAGTAAAGCGCTCGGGAAAGGTGCCGAGACTCCT 2 79 1 CGAGACTCCTGGCTAGAGGAGTGGGCG 2 105 1 GCGCCTGCGAGGCGTTAGGGGTGGTGAAAAGGAGTT 3 15 0 GCTAGAATGCGGCGAGCTGGCGCCTGCGAGGCGTTA 3 34 0 GATTTGGACAGGTACCACGCGGGAGGTTTGACAAGC 3 83 0 TCCACACGCAGGCGTTGGAACGGCAGCAAGACGATT 3 115 0 TTCCAACGCCTGCGTGTGGACTCAAGCCTTCGCGCT 3 131 1 GGCATGGTAGGGCGATCGGGACGCTCTAGTCAACCG 3 168 0 TGCCACCCTCGGCAAGAGGGGCATGGTAGGGCGATC 3 187 0 *** * ** *** * MAP Score: 21.4017 Motif 2 TTTTCAGATAGTGCACGGTATGAGGAAGGGAGG 0 6 1 GTGGATACTCGCGCTCTGCTCCTCCCCCGAGGTACCGCACC 1 9 0 TATCCACAGGGCGAGAGGGAGGTTCCTGATGGGGCTGCTGCG 1 44 1 AGCCAGCAGGTGCGAGCCGTCCAGTAGCCTGCGGAGC 2 5 1 AAAGTAAAGCGCTCGGGAAAGGTGCCGAGACTCCTGGCTAGA 2 80 1 GCGAGCTGGCGCCTGCGAGGCGTTAGGGGTGGTGAAAAGGAG 3 17 0 ATTTCTCCATGCGCTAGAATGCGGCGAGCTGGCGCCTGCGAG 3 40 0 TGGAGAAATAGCTTGTCAAACCTCCCGCGTGGTACCTGTCCA 3 73 1 CCACACGCAGGCGTTGGAACGGCAGCAAGACGATTTGGACAG 3 108 0 ATCGGGACGCTCTAGTCAACCGAAGCGCGAAGGCTTGAGTCC 3 148 0 GGCAAGAGGGGCATGGTAGGGCGATCGGGACGCTCTAGTCAA 3 171 0 AAATAGAGAAGCGTGCCACCCTCGGCAAGAGGGGCATGGTAG 3 194 0 ** * * ** * ** * MAP Score: 19.8207 Motif 3 CCTCCCTTCCTCATACCGTGCACTATCTGAA 0 12 0 CGCTCTGCTCCTCCCCCGAGGTACCGCACC 1 1 0 TCCCTCTCGCCCTGTGGATACTCGCGCTCTGCTCCTCCC 1 25 0 GAGGGAGGTTCCTGATGGGGCTGCTGCGCGTACCCTCCA 1 58 1 TGCGCGTACCCTCCATTCTTATAGGGAGAACAC 1 82 1 GGTGCGAGCCGTCCAGTAGCCTGCGGAGCTGCAGACCAC 2 18 1 AGCCAGGAGTCTCGGCACCTTTCCCGAGCGCTTTACTTT 2 80 0 TGCCGAGACTCCTGGCTAGAGGAGTGGGCG 2 102 1 CTTTTCACCACCCCTAACGCCTCGCAGGCGCCAGCTCGC 3 20 1 ACAAGCTATTTCTCCATGCGCTAGAATGCGGCGAGCTGG 3 50 0 GGAGAAATAGCTTGTCAAACCTCCCGCGTGGTACCTGTC 3 74 1 TCCAAATCGTCTTGCTGCCGTTCCAACGCCTGCGTGTGG 3 111 1 AGCCTTCGCGCTTCGGTTGACTAGAGCGTCCCGATCGCC 3 155 1 ACTAGAGCGTCCCGATCGCCCTACCATGCCCCTCTTGCC 3 174 1 CCATGCCCCTCTTGCCGAGGGTGGCACGCTTCTCTATTT 3 197 1 **** *** * ** MAP Score: 17.2922 Motif 4 TCAGATAGTGCACGGTATGAGGAAGGGAGG 0 13 1 GGTGCGGTACCTCGGGGGAGGAGCAGAGCGCGAGT 1 9 1 CGAGTATCCACAGGGCGAGAGGGAGGTTCCTGATGG 1 40 1 GAGGTTCCTGATGGGGCTGCTGCGCGTACCCTCCAT 1 62 1 AGCCAGCAGGTGCGAGCCGTCCAGTAGCC 2 3 1 TGGTCTGCAGCTCCGCAGGCTACTGGACGGCTCGCA 2 20 0 AAGTAAAGCGCTCGGGAAAGGTGCCGAGACTCCTGG 2 81 1 GCCCACTCCTCTAGCCAGGAGTCTCGGCACCTTTCC 2 95 0 TGCGGCGAGCTGGCGCCTGCGAGGCGTTAGGGGTGG 3 27 0 ACAGGTACCACGCGGGAGGTTTGACAAGCTATTTCT 3 76 0 GCTGCCGTTCCAACGCCTGCGTGTGGACTCAAGCCT 3 124 1 ACGCTCTAGTCAACCGAAGCGCGAAGGCTTGAGTCC 3 148 0 AGGGGCATGGTAGGGCGATCGGGACGCTCTAGTCAA 3 171 0 GCGTGCCACCCTCGGCAAGAGGGGCATGGTAGGGCG 3 190 0 GAGTCACGAAATAGAGAAGCGTGCCACCCTCGGCAA 3 208 0 TTAGGATTGCTTCGAGAAGAGTCACGAAATAGAGAA 3 226 0 * **** * * * ** MAP Score: 16.3357 Motif 5 TTTTCAGATAGTGCACGGTATGAGGAAGGGAGG 0 6 1 GGTGCGGTACCTCGGGGGAGGAGCAGAGCGCGAGTATCCAC 1 9 1 TATCCACAGGGCGAGAGGGAGGTTCCTGATGGGGCTGCTGCG 1 44 1 GTTCTCCCTATAAGAATGGAGGGTACGCGCAGCAGCCCCATC 1 71 0 AGCCAGCAGGTGCGAGCCGTCCAGTAGCCTGCGGAGC 2 5 1 AAAGTAAAGCGCTCGGGAAAGGTGCCGAGACTCCTGGCTAGA 2 80 1 CTAGAATGCGGCGAGCTGGCGCCTGCGAGGCGTTAGGGGTGG 3 27 0 CTCGCCGCATTCTAGCGCATGGAGAAATAGCTTGTCAAACCT 3 54 1 CCGTTCCAACGCCTGCGTGTGGACTCAAGCCTTCGCGCTTCG 3 128 1 GGCAAGAGGGGCATGGTAGGGCGATCGGGACGCTCTAGTCAA 3 171 0 ** * * * ** * * * MAP Score: 11.0422 Motif 6 TTTTCAGATAGTGCACGGTATGAGGAAGGGAGG 0 10 1 CTCGCGCTCTGCTCCTCCCCCGAGGTACCGCACC 1 3 0 GGGAGGAGCAGAGCGCGAGTATCCACAGGGCGAGAGGGAGG 1 25 1 GTGTTCTCCCTATAAGAATGGAGGGTACGCGCA 1 82 0 AGCCAGCAGGTGCGAGCCGTCCAGTAGCCTGCGG 2 3 1 GTAGCCTGCGGAGCTGCAGACCACTGGACGGTTTTTTATTT 2 33 1 AAAAAGTAAAGCGCTCGGGAAAGGTGCCGAGACTCCTGGCT 2 78 1 CGGCGAGCTGGCGCCTGCGAGGCGTTAGGGGTGGTGAAAAG 3 20 0 ATTTCTCCATGCGCTAGAATGCGGCGAGCTGGCGCCTGCGA 3 41 0 CATGGAGAAATAGCTTGTCAAACCTCCCGCGTGGTACCTGT 3 71 1 CGATCGGGACGCTCTAGTCAACCGAAGCGCGAAGGCTTGAG 3 151 0 TCGGCAAGAGGGGCATGGTAGGGCGATCGGGACGCTCTAGT 3 174 0 GCTTCGAGAAGAGTCACGAAATAGAGAAGCGTGCCACCCTC 3 213 0 * ** * * ** ** * MAP Score: 8.98086 Motif 7 GGTGCGGTACCTCGGGGGAGGAGCAGAGCGC 1 6 1 GGGGAGGAGCAGAGCGCGAGTATCCACAGGGCGAG 1 24 1 GCGAGTATCCACAGGGCGAGAGGGAGGTTCCTGAT 1 39 1 AGGCTACTGGACGGCTCGCACCTGCTGGCT 2 5 0 TAAAAAGTAAAGCGCTCGGGAAAGGTGCCGAGACT 2 77 1 ACCACCCCTAACGCCTCGCAGGCGCCAGCTCGCCG 3 26 1 ATGCGCTAGAATGCGGCGAGCTGGCGCCTGCGAGG 3 39 0 ATAGCTTGTCAAACCTCCCGCGTGGTACCTGTCCA 3 80 1 CTGCCGTTCCAACGCCTGCGTGTGGACTCAAGCCT 3 125 1 TGTGGACTCAAGCCTTCGCGCTTCGGTTGACTAGA 3 145 1 CGGTTGACTAGAGCGTCCCGATCGCCCTACCATGC 3 168 1 * ******* ** MAP Score: 6.31443 Motif 8 GGTGCGGTACCTCGGGGGAGGAGCAGAGCG 1 6 1 AGCAGAGCGCGAGTATCCACAGGGCGAGAGGGAG 1 31 1 GCCCCATCAGGAACCTCCCTCTCGCCCTGTGGAT 1 45 0 TCCTGATGGGGCTGCTGCGCGTACCCTCCATTCT 1 67 1 AGGCTACTGGACGGCTCGCACCTGCTGGCT 2 6 0 CCAGTGGTCTGCAGCTCCGCAGGCTACTGGACGG 2 26 0 GAGTCTCGGCACCTTTCCCGAGCGCTTTACTTTT 2 79 0 AGGTGCCGAGACTCCTGGCTAGAGGAGTGGGCG 2 99 1 ACCACCCCTAACGCCTCGCAGGCGCCAGCTCGCC 3 26 1 ATAGCTTGTCAAACCTCCCGCGTGGTACCTGTCC 3 80 1 TCGTCTTGCTGCCGTTCCAACGCCTGCGTGTGGA 3 117 1 TCAAGCCTTCGCGCTTCGGTTGACTAGAGCGTCC 3 152 1 ATAGAGAAGCGTGCCACCCTCGGCAAGAGGGGCA 3 200 0 AGGGTGGCACGCTTCTCTATTTCGTGACTCTTCT 3 214 1 ** ****** * * MAP Score: 6.1482 Motif 9 TTTTCAGATAGTGCACGGTATGAGGAAGGGAGG 0 10 1 GGTGCGGTACCTCGGGGGAGGAGCAGAGCGCGAGTATCCA 1 9 1 AGTATCCACAGGGCGAGAGGGAGGTTCCTGATGGGGCTGCT 1 42 1 AGCCAGCAGGTGCGAGCCGTCCAGTAGCCTGCGG 2 3 1 GTAGCCTGCGGAGCTGCAGACCACTGGACGGTTTTTTATTT 2 33 1 AAAAAGTAAAGCGCTCGGGAAAGGTGCCGAGACTCCTGGCT 2 78 1 AGAATGCGGCGAGCTGGCGCCTGCGAGGCGTTAGGGGTGGT 3 26 0 CGAAGCGCGAAGGCTTGAGTCCACACGCAGGCGTTGGAACG 3 129 0 TCAAGCCTTCGCGCTTCGGTTGACTAGAGCGTCCCGATCGC 3 152 1 TCGGCAAGAGGGGCATGGTAGGGCGATCGGGACGCTCTAGT 3 174 0 * ** * * ** * ** MAP Score: 4.664 Motif 10 GCACGGTATGAGGAAGGGAGG 0 22 1 GCGGTACCTCGGGGGAGGAGCAGAGCGCGAG 1 13 1 GAGGAGCAGAGCGCGAGTATCCACAGGGCGA 1 27 1 AGTATCCACAGGGCGAGAGGGAGGTTCCTGA 1 42 1 GGTTCCTGATGGGGCTGCTGCGCGTACCCTC 1 64 1 TGGACGGCTCGCACCTGCTGGCT 2 2 0 AGTAGCCTGCGGAGCTGCAGACCACTGGACG 2 32 1 TAAAGCGCTCGGGAAAGGTGCCGAGACTCCT 2 84 1 GCGAGGCGTTAGGGGTGGTGAAAAGGAGTTT 3 14 0 CGCCTCGCAGGCGCCAGCTCGCCGCATTCTA 3 37 1 CCGCATTCTAGCGCATGGAGAAATAGCTTGT 3 58 1 AGGTACCACGCGGGAGGTTTGACAAGCTATT 3 79 0 TGCCGTTCCAACGCCTGCGTGTGGACTCAAG 3 126 1 CAACCGAAGCGCGAAGGCTTGAGTCCACACG 3 143 0 TCGGCAAGAGGGGCATGGTAGGGCGATCGGG 3 184 0 TGCCCCTCTTGCCGAGGGTGGCACGCTTCTC 3 200 1 ***** ***** MAP Score: 2.3491 Motif 11 TCGCGCTCTGCTCCTCCCCCGAGGTACCGCACC 1 6 0 CTCGCCCTGTGGATACTCGCGCTCTGCTCCTCCCCCG 1 22 0 GAGCAGAGCGCGAGTATCCACAGGGCGAGAGGGAGGT 1 30 1 AGGGCGAGAGGGAGGTTCCTGATGGGGCTGCTGCGCG 1 51 1 TATAAGAATGGAGGGTACGCGCAGCAGCCCCATCAGG 1 68 0 CTACTGGACGGCTCGCACCTGCTGGCT 2 0 0 AGCCAGCAGGTGCGAGCCGTCCAGTAGCCTGC 2 5 1 GTCCAGTGGTCTGCAGCTCCGCAGGCTACTGGACGGC 2 25 0 GTGAAATAAAAAACCGTCCAGTGGTCTGCAGCTCCGC 2 40 0 ATTTCACTAAAAAGTAAAGCGCTCGGGAAAGGTGCCG 2 70 1 CGAGACTCCTGGCTAGAGGAGTGGGCG 2 105 1 TTCACCACCCCTAACGCCTCGCAGGCGCCAGCTCGCC 3 23 1 CTAACGCCTCGCAGGCGCCAGCTCGCCGCATTCTAGC 3 33 1 ACGATTTGGACAGGTACCACGCGGGAGGTTTGACAAG 3 84 0 GTACCTGTCCAAATCGTCTTGCTGCCGTTCCAACGCC 3 104 1 GCGAAGGCTTGAGTCCACACGCAGGCGTTGGAACGGC 3 127 0 GCTCTAGTCAACCGAAGCGCGAAGGCTTGAGTCCACA 3 145 0 CAAGAGGGGCATGGTAGGGCGATCGGGACGCTCTAGT 3 174 0 AAGCGTGCCACCCTCGGCAAGAGGGGCATGGTAGGGC 3 191 0 * ***** **** MAP Score: 1.97733 Motif 12 CTCATACCGTGCACTATCTGAAAA 0 4 0 CACGGTATGAGGAAGGGAGG 0 23 1 GCGGTACCTCGGGGGAGGAGCAGAGCGCGA 1 13 1 AGTATCCACAGGGCGAGAGGGAGGTTCCTG 1 42 1 GGTTCCTGATGGGGCTGCTGCGCGTACCCT 1 64 1 TGGACGGCTCGCACCTGCTGGCT 2 3 0 AGTAGCCTGCGGAGCTGCAGACCACTGGAC 2 32 1 GCGAGGCGTTAGGGGTGGTGAAAAGGAGTT 3 15 0 CGGCGAGCTGGCGCCTGCGAGGCGTTAGGG 3 31 0 CGCTAGAATGCGGCGAGCTGGCGCCTGCGA 3 41 0 GGTACCACGCGGGAGGTTTGACAAGCTATT 3 79 0 CGCAGGCGTTGGAACGGCAGCAAGACGATT 3 115 0 AACCGAAGCGCGAAGGCTTGAGTCCACACG 3 143 0 GGGCATGGTAGGGCGATCGGGACGCTCTAG 3 175 0 GCCACCCTCGGCAAGAGGGGCATGGTAGGG 3 192 0 ********** MAP Score: 0.958704 Motif 13 CACGGTATGAGGAAGGGAGG 0 23 1 GGTGCGGTACCTCGGGGGAGGAGCAGAGCG 1 10 1 CGGGGGAGGAGCAGAGCGCGAGTATCCACA 1 22 1 GCGCGAGTATCCACAGGGCGAGAGGGAGGT 1 37 1 ACAGGGCGAGAGGGAGGTTCCTGATGGGGC 1 49 1 GTTCCTGATGGGGCTGCTGCGCGTACCCTC 1 65 1 AGCCAGCAGGTGCGAGCCGT 2 0 1 GCAGGCTACTGGACGGCTCGCACCTGCTGG 2 12 0 GCCGTCCAGTAGCCTGCGGAGCTGCAGACC 2 25 1 TAAAGCGCTCGGGAAAGGTGCCGAGACTCC 2 84 1 CCTGGCTAGAGGAGTGGGCG 2 112 1 GCGAGGCGTTAGGGGTGGTGAAAAGGAGTT 3 15 0 GGCGAGCTGGCGCCTGCGAGGCGTTAGGGG 3 30 0 GCTAGAATGCGGCGAGCTGGCGCCTGCGAG 3 40 0 CCGCATTCTAGCGCATGGAGAAATAGCTTG 3 58 1 GACAGGTACCACGCGGGAGGTTTGACAAGC 3 83 0 GGCGTTGGAACGGCAGCAAGACGATTTGGA 3 111 0 GCCGTTCCAACGCCTGCGTGTGGACTCAAG 3 127 1 TGTGGACTCAAGCCTTCGCGCTTCGGTTGA 3 145 1 GGCATGGTAGGGCGATCGGGACGCTCTAGT 3 174 0 CGGCAAGAGGGGCATGGTAGGGCGATCGGG 3 184 0 GTGCCACCCTCGGCAAGAGGGGCATGGTAG 3 194 0 AGCAATCCTAACAAAGGGGGTTCTC 3 251 1 ********** MAP Score: 0.138368